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Coevolution - Main

Coevolution analysis of protein residues.

http://coevolution.gersteinlab.org/

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Coevolution - Main | coevolution.gersteinlab.org Reviews

https://coevolution.gersteinlab.org

Coevolution analysis of protein residues.

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Coevolution - Web supplement

http://coevolution.gersteinlab.org/coevolution/supp.jsp

Coevolution analysis of protein residues. Supplementary web site for. Kevin Y. Yip, Prianka Patel, Philip M. Kim, Donald M. Engelman, Drew McDermott and Mark Gerstein. An Integrated System for Studying Residue Coevolution in Proteins. Go to the Coevolution. Of the workflow chart in Figure 1. Of our SCA implementation and its differences from the original SCA method.

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Coevolution API

http://coevolution.gersteinlab.org/coevolution/javadoc/index.html

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Methods for studying protein co-evolution - Computational Systems Biology Group

http://csbg.cnb.csic.es/rev_coevol_nrg

Methodologies for studying protein co-evolution. David Juan, Florencio Pazos and Alfonso Valencia (2013). Emerging methods in protein co-evolution. Nature Reviews Genetics. Available co-evolution related methods. One Large famiy MSA. Protein contacts (model selection for homology modeling). Java code ( http:/ www.afodor.net/covariance1 1.zip. Coevolution analysis server ( http:/ coevolution.gersteinlab.org/coevolution/. Mutual information corrected (Mip). One Large famiy MSA. DCA / DCA optimized. Fortarn...

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Coevolution - Main

Coevolution analysis of protein residues. Download to run locally. Required for tree-based seq. weighting only). Absolute hydropathy index change. Case analysis with conservation normalization. Min{H(X Y),H(Y X)}. Max{H(X Y),H(Y X)}. Maximum fraction of gaps per sequence:. Maximum similarity between two sequences (0-1):. Minimum number of sequences after filtering:. Maximum fraction of gaps per site:. Maximum fraction of sequences having the same residue/group:. Elcock and McCammon, PNAS 2001.

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